miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
30509 5' -57.7 NC_006548.1 + 27517 0.66 0.473772
Target:  5'- gGUCCagGGgCUgCUGUuCGCCGGCAu -3'
miRNA:   3'- gCAGGaaUCgGAgGACGcGUGGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 22598 0.66 0.473772
Target:  5'- -cUCCUccGCCggcggCUGUGCGCCGGUAg -3'
miRNA:   3'- gcAGGAauCGGag---GACGCGUGGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 11307 0.66 0.453359
Target:  5'- aGUCCUUcuggucGCCUaUUGCGCGuuGGCAg -3'
miRNA:   3'- gCAGGAAu-----CGGAgGACGCGUggUCGU- -5'
30509 5' -57.7 NC_006548.1 + 8777 0.66 0.443333
Target:  5'- cCGUCCUgcaugacgccguuggGGCgCUCCUG-GCuuuccauGCCGGCAg -3'
miRNA:   3'- -GCAGGAa--------------UCG-GAGGACgCG-------UGGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 2860 0.66 0.43245
Target:  5'- gCG-CCUUGGCCgCCUGCagGCGCUcgucgaaGGCGa -3'
miRNA:   3'- -GCaGGAAUCGGaGGACG--CGUGG-------UCGU- -5'
30509 5' -57.7 NC_006548.1 + 36735 0.67 0.417864
Target:  5'- uGUCCUcuguuGCCcaaUCCUcguagaaccagaucaGCGCGCCGGCc -3'
miRNA:   3'- gCAGGAau---CGG---AGGA---------------CGCGUGGUCGu -5'
30509 5' -57.7 NC_006548.1 + 21816 0.67 0.414026
Target:  5'- uGUCgaUAuCCgCCUGCgGCACCGGCGc -3'
miRNA:   3'- gCAGgaAUcGGaGGACG-CGUGGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 25943 0.67 0.404525
Target:  5'- aGggCCagAGCCUCCUGaaCGCGCCaucgAGCGc -3'
miRNA:   3'- gCa-GGaaUCGGAGGAC--GCGUGG----UCGU- -5'
30509 5' -57.7 NC_006548.1 + 15218 0.67 0.367931
Target:  5'- gCGUCCgccgcgcuuGCCggCCUGCGCGuCCGGg- -3'
miRNA:   3'- -GCAGGaau------CGGa-GGACGCGU-GGUCgu -5'
30509 5' -57.7 NC_006548.1 + 33173 0.68 0.359145
Target:  5'- aGUCCgaagacuuGUC-CCUGuCGUACCAGCGg -3'
miRNA:   3'- gCAGGaau-----CGGaGGAC-GCGUGGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 5853 0.68 0.359145
Target:  5'- aCGgCCUUGGCCUUgcGCGCAgCCuGCAc -3'
miRNA:   3'- -GCaGGAAUCGGAGgaCGCGU-GGuCGU- -5'
30509 5' -57.7 NC_006548.1 + 32501 0.68 0.325486
Target:  5'- aGUCCagauGCgCUCCUGCaGCGCC-GCGa -3'
miRNA:   3'- gCAGGaau-CG-GAGGACG-CGUGGuCGU- -5'
30509 5' -57.7 NC_006548.1 + 1123 0.7 0.25851
Target:  5'- aG-CC-UGGCCgUCUGCGCGgCCAGCAa -3'
miRNA:   3'- gCaGGaAUCGGaGGACGCGU-GGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 29730 0.7 0.245246
Target:  5'- --aCCggcAGCCgcaCCUGcCGCACCGGCAc -3'
miRNA:   3'- gcaGGaa-UCGGa--GGAC-GCGUGGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 1431 0.71 0.226415
Target:  5'- -uUCCUgGGCCUCCUGCcGCuuuacgUCAGCAu -3'
miRNA:   3'- gcAGGAaUCGGAGGACG-CGu-----GGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 20862 0.71 0.214552
Target:  5'- --aCCggAGCCUUCUgGCGCGgCAGCAg -3'
miRNA:   3'- gcaGGaaUCGGAGGA-CGCGUgGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 2199 0.73 0.149844
Target:  5'- aGUCCUUGcgcGCCUUCUGCaGCugucgcuCCAGCAc -3'
miRNA:   3'- gCAGGAAU---CGGAGGACG-CGu------GGUCGU- -5'
30509 5' -57.7 NC_006548.1 + 12900 1.08 0.000371
Target:  5'- uCGUCCUUAGCCUCCUGCGCACCAGCAc -3'
miRNA:   3'- -GCAGGAAUCGGAGGACGCGUGGUCGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.